Integrated transcriptomic and metabolomic analysis the variation of rice cultivars response to arsenite stress

Ma, Lan; Zeng, Jin; Zhang, Rui Qi; Lin, Wei; Zhang, Fawen; Zhao, Xuejin; Yuan, Yuan; Li, Limei

doi:10.1016/j.eti.2023.103207

Cited by 7 publications

(1 citation statement)

References 51 publications

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“…Arsenic (As) is a carcinogen, and its accumulation in rice can lead to growth restriction. To further investigate the potential mechanisms through which rice varieties respond to As stress, Ma et al, selected M2 and L5 as sensitive and tolerant varieties from 16 experimental varieties using a combination of transcriptomics and metabolomics approaches and integrated the results of transcriptomics and metabolomics to reveal the molecular mechanisms and processes associated with the responses of the two varieties to As stress [73]. By integrating transcriptomic and proteomic methods, Prathi et al studied six rice genotypes, including two disease-tolerant varieties and four diseasesusceptible varieties, to reveal the important role of DEPs in the rice variety Rhizoctonia solani [74].…”

Section: Functional Gene Mining By Multi-omicsmentioning

confidence: 99%

Progress in Rice Breeding Based on Genomic Research

Yang,

Yu,

Yan

et al. 2024

Genes

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The role of rice genomics in breeding progress is becoming increasingly important. Deeper research into the rice genome will contribute to the identification and utilization of outstanding functional genes, enriching the diversity and genetic basis of breeding materials and meeting the diverse demands for various improvements. Here, we review the significant contributions of rice genomics research to breeding progress over the last 25 years, discussing the profound impact of genomics on rice-genome sequencing, functional-gene exploration, and novel breeding methods, and we provide valuable insights for future research and breeding practices.

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Section: Functional Gene Mining By Multi-omicsmentioning

confidence: 99%

Progress in Rice Breeding Based on Genomic Research

Yang,

Yu,

Yan

et al. 2024

Genes

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Transcriptomics, proteomics, and metabolomics interventions prompt crop improvement against metal(loid) toxicity

Raza,

Salehi,

Bashir

et al. 2024

Plant Cell Rep

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The escalating challenges posed by metal(loid) toxicity in agricultural ecosystems, exacerbated by rapid climate change and anthropogenic pressures, demand urgent attention. Soil contamination is a critical issue because it significantly impacts crop productivity. The widespread threat of metal(loid) toxicity can jeopardize global food security due to contaminated food supplies and pose environmental risks, contributing to soil and water pollution and thus impacting the whole ecosystem. In this context, plants have evolved complex mechanisms to combat metal(loid) stress. Amid the array of innovative approaches, omics, notably transcriptomics, proteomics, and metabolomics, have emerged as transformative tools, shedding light on the genes, proteins, and key metabolites involved in metal(loid) stress responses and tolerance mechanisms. These identified candidates hold promise for developing high-yielding crops with desirable agronomic traits. Computational biology tools like bioinformatics, biological databases, and analytical pipelines support these omics approaches by harnessing diverse information and facilitating the mapping of genotype-to-phenotype relationships under stress conditions. This review explores: (1) the multifaceted strategies that plants use to adapt to metal(loid) toxicity in their environment; (2) the latest findings in metal(loid)-mediated transcriptomics, proteomics, and metabolomics studies across various plant species; (3) the integration of omics data with artificial intelligence and high-throughput phenotyping; (4) the latest bioinformatics databases, tools and pipelines for single and/or multi-omics data integration; (5) the latest insights into stress adaptations and tolerance mechanisms for future outlooks; and (6) the capacity of omics advances for creating sustainable and resilient crop plants that can thrive in metal(loid)-contaminated environments.

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